R: Find the Taxonomy Information Matrix

findTaxonMat {PathoStat}

R Documentation

Find the Taxonomy Information Matrix

Description

Find the Taxonomy Information Matrix

Usage

findTaxonMat(names, taxonLevels)

Arguments

`names`	Row names of the taxonomy matrix
`taxonLevels`	Taxon Levels of all tids

Value

taxmat Taxonomy Information Matrix

Examples

example_data_dir <- system.file("example/data", package = "PathoStat")
pathoreport_file_suffix <- "-sam-report.tsv"
datlist <- readPathoscopeData(example_data_dir, pathoreport_file_suffix)
dat <- datlist$data
ids <- rownames(dat)
tids <- unlist(lapply(ids, FUN = grepTid))
taxonLevels <- findTaxonomy(tids[1:5])
taxmat <- findTaxonMat(ids[1:5], taxonLevels)

[Package PathoStat version 1.6.1 Index]